1
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Tsuda T, Arai A, Kita M. Ligand-Dissociation-Type N,N-Dimethylaminopyrene Probes for in situ Site-Specific Protein Labeling. Chem Asian J 2022; 17:e202200631. [PMID: 35862122 DOI: 10.1002/asia.202200631] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2022] [Revised: 07/15/2022] [Indexed: 11/10/2022]
Abstract
To develop practical methods for in situ labeling of target proteins and to analyze their binding modes with bioactive ligands, 6 N , N -dimethylaminopyrene- N -acyl- N -alkylsulfonamide-4,8diazacyclononyne (dmpy-NASA-DACN) tags were synthesized. Strain-promoted azide-alkyne cyclization with azide-conjugated ligands (biotin and sulfonamide) gave ligand-dissociation-type dmpy probes. With these probes, specific labeling of avidin and human carboxylase 1 (hCA1) proceeded even in the presence of cell lysate proteins in ca. 10% RIPA buffer. Affinity purification, in-gel tryptic digestion on polystyrene gel, and MALDI MS analysis established the dmpylabeled positions of target proteins. Molecular modeling studies also supported why the dmpy-labeling reactions proceeded sitespecifically near ligand-binding sites on the target proteins. Our findings might contribute to the development of chemical probes that specifically label various biomacromolecules in cells.
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Affiliation(s)
- Tomohito Tsuda
- Nagoya University: Nagoya Daigaku, Bioagricultural Sciences, JAPAN
| | - Atsushi Arai
- Nagoya University: Nagoya Daigaku, Bioagricultural Sciences, JAPAN
| | - Masaki Kita
- Nagoya University, Bioagricultural Sciences, Furo-cho, Chikusa, 464-8601, Nagoya, JAPAN
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2
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Visible‐Light‐Mediated Synthesis of 1‐Oxa‐4‐aza‐spiro Oxazolines by Spiroannulation of Quinones with Vinyl Azides. European J Org Chem 2022. [DOI: 10.1002/ejoc.202200503] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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3
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Lin W, Conway LP, Vujasinovic M, Löhr J, Globisch D. Chemoselective and Highly Sensitive Quantification of Gut Microbiome and Human Metabolites. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202107101] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Affiliation(s)
- Weifeng Lin
- Department of Chemistry—BMC Science for Life Laboratory Uppsala University, Box 599 75124 Uppsala Sweden
| | - Louis P. Conway
- Department of Chemistry—BMC Science for Life Laboratory Uppsala University, Box 599 75124 Uppsala Sweden
| | - Miroslav Vujasinovic
- Department for Digestive Diseases Karolinska University Hospital Stockholm Sweden
| | - J.‐Matthias Löhr
- Department for Digestive Diseases Karolinska University Hospital Stockholm Sweden
- Department of Clinical Science Intervention and Technology (CLINTEC) Karolinska Institute Stockholm Sweden
| | - Daniel Globisch
- Department of Chemistry—BMC Science for Life Laboratory Uppsala University, Box 599 75124 Uppsala Sweden
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4
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Lin W, Conway LP, Vujasinovic M, Löhr JM, Globisch D. Chemoselective and highly sensitive quantification of gut microbiome and human metabolites. Angew Chem Int Ed Engl 2021; 60:23232-23240. [PMID: 34339587 PMCID: PMC8597006 DOI: 10.1002/anie.202107101] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2021] [Revised: 07/15/2021] [Indexed: 11/18/2022]
Abstract
The microbiome has a fundamental impact on the human host's physiology through the production of highly reactive compounds that can lead to disease development. One class of such compounds are carbonyl‐containing metabolites, which are involved in diverse biochemical processes. Mass spectrometry is the method of choice for analysis of metabolites but carbonyls are analytically challenging. Herein, we have developed a new chemical biology tool using chemoselective modification to overcome analytical limitations. Two isotopic probes allow for the simultaneous and semi‐quantitative analysis at the femtomole level as well as qualitative analysis at attomole quantities that allows for detection of more than 200 metabolites in human fecal, urine and plasma samples. This comprehensive mass spectrometric analysis enhances the scope of metabolomics‐driven biomarker discovery. We anticipate that our chemical biology tool will be of general use in metabolomics analysis to obtain a better understanding of microbial interactions with the human host and disease development.
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Affiliation(s)
- Weifeng Lin
- Uppsala University: Uppsala Universitet, Dept. Chemistry - BMC, Uppsala, SWEDEN
| | - Louis P Conway
- Uppsala University: Uppsala Universitet, Dept. Chem. - BMC, 75421, Uppsala, SWEDEN
| | - Miroslav Vujasinovic
- Karolinska University Hospital: Karolinska Universitetssjukhuset, Dept. for Digestive Diseases, Stockholm, SWEDEN
| | - J-Matthias Löhr
- Karolinska Institute: Karolinska Institutet, Dept. Clinical Science, Intervention and Technology, Stockholm, SWEDEN
| | - Daniel Globisch
- Uppsala University, Department of Medicinal Chemistry, Husaragatan 3, Biomedical Center, Box 574, 75123, Uppsala, SWEDEN
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5
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Peñalver L, Schmid P, Szamosvári D, Schildknecht S, Globisch C, Sawade K, Peter C, Böttcher T. A Ligand Selection Strategy Identifies Chemical Probes Targeting the Proteases of SARS-CoV-2. Angew Chem Int Ed Engl 2021; 60:6799-6806. [PMID: 33350010 PMCID: PMC7986205 DOI: 10.1002/anie.202016113] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2020] [Indexed: 01/05/2023]
Abstract
Activity-based probes are valuable tools for chemical biology. However, finding probes that specifically target the active site of an enzyme remains a challenging task. Herein, we present a ligand selection strategy that allows to rapidly tailor electrophilic probes to a target of choice and showcase its application for the two cysteine proteases of SARS-CoV-2 as proof of concept. The resulting probes were specific for the active site labeling of 3CLpro and PLpro with sufficient selectivity in a live cell model as well as in the background of a native human proteome. Exploiting the probes as tools for competitive profiling of a natural product library identified salvianolic acid derivatives as promising 3CLpro inhibitors. We anticipate that our ligand selection strategy will be useful to rapidly develop customized probes and discover inhibitors for a wide range of target proteins also beyond corona virus proteases.
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Affiliation(s)
- Lilian Peñalver
- Department of ChemistryKonstanz Research School Chemical BiologyZukunftskollegUniversity of KonstanzKonstanzGermany
| | - Philipp Schmid
- Department of ChemistryKonstanz Research School Chemical BiologyZukunftskollegUniversity of KonstanzKonstanzGermany
- Faculty of ChemistryDepartment of Biological Chemistry & Centre for Microbiology and Environmental Systems ScienceDivision of Microbial EcologyUniversity of ViennaViennaAustria
| | - Dávid Szamosvári
- Department of ChemistryKonstanz Research School Chemical BiologyZukunftskollegUniversity of KonstanzKonstanzGermany
| | - Stefan Schildknecht
- In Vitro Toxicology and BiomedicineDepartment of BiologyUniversity of KonstanzKonstanzGermany
- Albstadt-Sigmaringen UniversitySigmaringenGermany
| | | | - Kevin Sawade
- Department of ChemistryUniversity of KonstanzKonstanzGermany
| | - Christine Peter
- Department of ChemistryUniversity of KonstanzKonstanzGermany
| | - Thomas Böttcher
- Department of ChemistryKonstanz Research School Chemical BiologyZukunftskollegUniversity of KonstanzKonstanzGermany
- Faculty of ChemistryDepartment of Biological Chemistry & Centre for Microbiology and Environmental Systems ScienceDivision of Microbial EcologyUniversity of ViennaViennaAustria
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6
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Peñalver L, Schmid P, Szamosvári D, Schildknecht S, Globisch C, Sawade K, Peter C, Böttcher T. Eine Strategie zur Ligandenselektion identifiziert chemische Sonden für die Markierung von SARS‐CoV‐2‐Proteasen. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202016113] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Affiliation(s)
- Lilian Peñalver
- Fachbereich Chemie Konstanz Research School Chemical Biology Zukunftskolleg Universität Konstanz Konstanz Deutschland
| | - Philipp Schmid
- Fachbereich Chemie Konstanz Research School Chemical Biology Zukunftskolleg Universität Konstanz Konstanz Deutschland
- Fakultät für Chemie Institut für Biologische Chemie & Centre for Microbiology and Environmental Systems Science Division of Microbial Ecology Universität Wien Wien Österreich
| | - Dávid Szamosvári
- Fachbereich Chemie Konstanz Research School Chemical Biology Zukunftskolleg Universität Konstanz Konstanz Deutschland
| | - Stefan Schildknecht
- In Vitro Toxicology and Biomedicine Fachbereich Biologie Universität Konstanz Konstanz Deutschland
- Hochschule Albstadt-Sigmaringen Sigmaringen Deutschland
| | | | - Kevin Sawade
- Fachbereich Chemie Universität Konstanz Konstanz Deutschland
| | - Christine Peter
- Fachbereich Chemie Universität Konstanz Konstanz Deutschland
| | - Thomas Böttcher
- Fachbereich Chemie Konstanz Research School Chemical Biology Zukunftskolleg Universität Konstanz Konstanz Deutschland
- Fakultät für Chemie Institut für Biologische Chemie & Centre for Microbiology and Environmental Systems Science Division of Microbial Ecology Universität Wien Wien Österreich
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7
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Cai X, Shi YM, Pöhlmann N, Revermann O, Bahner I, Pidot SJ, Wesche F, Lackner H, Büchel C, Kaiser M, Richter C, Schwalbe H, Stinear TP, Zeeck A, Bode HB. Structure and Biosynthesis of Isatropolones, Bioactive Amine-Scavenging Fluorescent Natural Products from Streptomyces Gö66. Angew Chem Int Ed Engl 2017; 56:4945-4949. [PMID: 28371116 DOI: 10.1002/anie.201701223] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2017] [Indexed: 01/09/2023]
Abstract
The natural products isatropolone A-C (1-3) were reisolated from Streptomyces Gö66, with 1 and 3 showing potent activity against Leishmania donovani. They contain a rare tropolone ring derived from a type II polyketide biosynthesis pathway. Their biosynthesis was elucidated by labeling experiments, analysis of the biosynthesis gene cluster, its partial heterologous expression, and structural characterization of various intermediates. Owing to their 1,5-diketone moiety, they can react with ammonia, amines, lysine, and lysine-containing peptides and proteins, which results in the formation of a covalent bond and subsequent pyridine ring formation. Their fluorescence properties change upon amine binding, enabling the simple visualization of reacted amines including proteins.
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Affiliation(s)
- Xiaofeng Cai
- Merck Stiftungsprofessur für Molekulare Biotechnologie, Fachbereich Biowissenschaften, Goethe-Universität Frankfurt, Max-von-Laue-Strasse 9, 60438, Frankfurt am Main, Germany
| | - Yi-Ming Shi
- Merck Stiftungsprofessur für Molekulare Biotechnologie, Fachbereich Biowissenschaften, Goethe-Universität Frankfurt, Max-von-Laue-Strasse 9, 60438, Frankfurt am Main, Germany
| | - Nicole Pöhlmann
- Institut für Organische und Biomolekulare Chemie, Georg-August-Universität Göttingen, Germany
| | - Ole Revermann
- Institut für Organische und Biomolekulare Chemie, Georg-August-Universität Göttingen, Germany
| | - Isabel Bahner
- Institut für Organische und Biomolekulare Chemie, Georg-August-Universität Göttingen, Germany
| | - Sacha J Pidot
- Department of Microbiology and Immunology, The Peter Doherty Institute for Infection and Immunity, The University of Melbourne, Australia
| | - Frank Wesche
- Merck Stiftungsprofessur für Molekulare Biotechnologie, Fachbereich Biowissenschaften, Goethe-Universität Frankfurt, Max-von-Laue-Strasse 9, 60438, Frankfurt am Main, Germany
| | - Helmut Lackner
- Institut für Organische und Biomolekulare Chemie, Georg-August-Universität Göttingen, Germany
| | - Claudia Büchel
- Institute of Molecular Biosciences, Goethe-Universität Frankfurt, Germany
| | - Marcel Kaiser
- Swiss Tropical and Public Health Institute, Parasite Chemotherapy, Basel, Switzerland.,University of Basel, Switzerland
| | - Christian Richter
- Institut für Organische Chemie und Chemische Biologie, Zentrum für Biomolekulare Magnetische Resonanz, Goethe-Universität Frankfurt, Germany
| | - Harald Schwalbe
- Institut für Organische Chemie und Chemische Biologie, Zentrum für Biomolekulare Magnetische Resonanz, Goethe-Universität Frankfurt, Germany
| | - Timothy P Stinear
- Department of Microbiology and Immunology, The Peter Doherty Institute for Infection and Immunity, The University of Melbourne, Australia
| | - Axel Zeeck
- Institut für Organische und Biomolekulare Chemie, Georg-August-Universität Göttingen, Germany
| | - Helge B Bode
- Merck Stiftungsprofessur für Molekulare Biotechnologie, Fachbereich Biowissenschaften, Goethe-Universität Frankfurt, Max-von-Laue-Strasse 9, 60438, Frankfurt am Main, Germany.,Buchmann Institute for Molecular Life Sciences (BMLS), Goethe-Universität Frankfurt, Germany
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8
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Cai X, Shi YM, Pöhlmann N, Revermann O, Bahner I, Pidot SJ, Wesche F, Lackner H, Büchel C, Kaiser M, Richter C, Schwalbe H, Stinear TP, Zeeck A, Bode HB. Struktur und Biosynthese der Isatropolone, bioaktiver und Amin-reaktiver fluoreszierender Naturstoffe aus Streptomyces
Gö66. Angew Chem Int Ed Engl 2017. [DOI: 10.1002/ange.201701223] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Xiaofeng Cai
- Merck Stiftungsprofessur für Molekulare Biotechnologie; Fachbereich Biowissenschaften; Goethe-Universität Frankfurt; Max-von-Laue-Straße 9 60438 Frankfurt am Main Deutschland
| | - Yi-Ming Shi
- Merck Stiftungsprofessur für Molekulare Biotechnologie; Fachbereich Biowissenschaften; Goethe-Universität Frankfurt; Max-von-Laue-Straße 9 60438 Frankfurt am Main Deutschland
| | - Nicole Pöhlmann
- Institut für Organische und Biomolekulare Chemie; Georg-August-Universität Göttingen; Deutschland
| | - Ole Revermann
- Institut für Organische und Biomolekulare Chemie; Georg-August-Universität Göttingen; Deutschland
| | - Isabel Bahner
- Institut für Organische und Biomolekulare Chemie; Georg-August-Universität Göttingen; Deutschland
| | - Sacha J. Pidot
- Department of Microbiology and Immunology; The Peter Doherty Institute for Infection and Immunity; The University of Melbourne; Australien
| | - Frank Wesche
- Merck Stiftungsprofessur für Molekulare Biotechnologie; Fachbereich Biowissenschaften; Goethe-Universität Frankfurt; Max-von-Laue-Straße 9 60438 Frankfurt am Main Deutschland
| | - Helmut Lackner
- Institut für Organische und Biomolekulare Chemie; Georg-August-Universität Göttingen; Deutschland
| | - Claudia Büchel
- Institut für Molekulare Biowissenschaften; Goethe-Universität Frankfurt; Deutschland
| | - Marcel Kaiser
- Schweizerisches Tropen- und Public Health-Institut; Parasite Chemotherapy; Basel Schweiz
- Universität Basel; Schweiz
| | - Christian Richter
- Institut für Organische Chemie und Chemische Biologie; Zentrum für Biomolekulare Magnetische Resonanz; Goethe-Universität Frankfurt; Deutschland
| | - Harald Schwalbe
- Institut für Organische Chemie und Chemische Biologie; Zentrum für Biomolekulare Magnetische Resonanz; Goethe-Universität Frankfurt; Deutschland
| | - Timothy P. Stinear
- Department of Microbiology and Immunology; The Peter Doherty Institute for Infection and Immunity; The University of Melbourne; Australien
| | - Axel Zeeck
- Institut für Organische und Biomolekulare Chemie; Georg-August-Universität Göttingen; Deutschland
| | - Helge B. Bode
- Merck Stiftungsprofessur für Molekulare Biotechnologie; Fachbereich Biowissenschaften; Goethe-Universität Frankfurt; Max-von-Laue-Straße 9 60438 Frankfurt am Main Deutschland
- Buchmann Institute for Molecular Life Sciences (BMLS); Goethe-Universität Frankfurt; Deutschland
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9
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Wang L, Ishida A, Hashidoko Y, Hashimoto M. Dehydrogenation of the NH−NH Bond Triggered by Potassium
tert
‐Butoxide in Liquid Ammonia. Angew Chem Int Ed Engl 2016. [DOI: 10.1002/ange.201610371] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Affiliation(s)
- Lei Wang
- Division of Applied Bioscience Graduate School of Agriculture Hokkaido University Kita 9, Nishi 9, Kita-ku Sapporo 060-8589 Japan
| | - Akiko Ishida
- Division of Applied Bioscience Graduate School of Agriculture Hokkaido University Kita 9, Nishi 9, Kita-ku Sapporo 060-8589 Japan
| | - Yasuyuki Hashidoko
- Division of Applied Bioscience Graduate School of Agriculture Hokkaido University Kita 9, Nishi 9, Kita-ku Sapporo 060-8589 Japan
| | - Makoto Hashimoto
- Division of Applied Bioscience Graduate School of Agriculture Hokkaido University Kita 9, Nishi 9, Kita-ku Sapporo 060-8589 Japan
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10
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Wang L, Ishida A, Hashidoko Y, Hashimoto M. Dehydrogenation of the NH-NH Bond Triggered by Potassium tert-Butoxide in Liquid Ammonia. Angew Chem Int Ed Engl 2016; 56:870-873. [PMID: 27936299 DOI: 10.1002/anie.201610371] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2016] [Indexed: 12/24/2022]
Abstract
A novel strategy for the dehydrogenation of the NH-NH bond is disclosed using potassium tert-butoxide (tBuOK) in liquid ammonia (NH3 ) under air at room temperature. Its synthetic value is well demonstrated by the highly efficient synthesis of aromatic azo compounds (up to 100 % yield, 3 min), heterocyclic azo compounds, and dehydrazination of phenylhydrazine. The broad application of this strategy and its benefit to chemical biology is proved by a novel, convenient, one-pot synthesis of aliphatic diazirines, which are important photoreactive agents for photoaffinity labeling.
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Affiliation(s)
- Lei Wang
- Division of Applied Bioscience, Graduate School of Agriculture, Hokkaido University, Kita 9, Nishi 9, Kita-ku, Sapporo, 060-8589, Japan
| | - Akiko Ishida
- Division of Applied Bioscience, Graduate School of Agriculture, Hokkaido University, Kita 9, Nishi 9, Kita-ku, Sapporo, 060-8589, Japan
| | - Yasuyuki Hashidoko
- Division of Applied Bioscience, Graduate School of Agriculture, Hokkaido University, Kita 9, Nishi 9, Kita-ku, Sapporo, 060-8589, Japan
| | - Makoto Hashimoto
- Division of Applied Bioscience, Graduate School of Agriculture, Hokkaido University, Kita 9, Nishi 9, Kita-ku, Sapporo, 060-8589, Japan
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11
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Zhang CJ, Wang J, Zhang J, Lee YM, Feng G, Lim TK, Shen HM, Lin Q, Liu B. Mechanism-Guided Design and Synthesis of a Mitochondria-Targeting Artemisinin Analogue with Enhanced Anticancer Activity. Angew Chem Int Ed Engl 2016; 55:13770-13774. [DOI: 10.1002/anie.201607303] [Citation(s) in RCA: 73] [Impact Index Per Article: 9.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2016] [Indexed: 11/08/2022]
Affiliation(s)
- Chong-Jing Zhang
- Department of Chemical and Biomolecular Engineering; National University of Singapore; 4 Engineering Drive 4 Singapore 117585 Singapore
| | - Jigang Wang
- The State Key Laboratory of Pharmaceutical Biotechnology; College of Life Science; Nanjing University; Nanjing 210023 China
- Department of Biological Science; National University of Singapore; 14 Science Drive 4 Singapore 117543 Singapore
| | - Jianbin Zhang
- Department of Physiology; Yong Loo Lin School of Medicine; National University of Singapore; 2 Medical Drive Singapore 117597 Singapore
| | - Yew Mun Lee
- Department of Biological Science; National University of Singapore; 14 Science Drive 4 Singapore 117543 Singapore
| | - Guangxue Feng
- Department of Chemical and Biomolecular Engineering; National University of Singapore; 4 Engineering Drive 4 Singapore 117585 Singapore
| | - Teck Kwang Lim
- Department of Biological Science; National University of Singapore; 14 Science Drive 4 Singapore 117543 Singapore
| | - Han-Ming Shen
- Department of Physiology; Yong Loo Lin School of Medicine; National University of Singapore; 2 Medical Drive Singapore 117597 Singapore
| | - Qingsong Lin
- Department of Biological Science; National University of Singapore; 14 Science Drive 4 Singapore 117543 Singapore
| | - Bin Liu
- Department of Chemical and Biomolecular Engineering; National University of Singapore; 4 Engineering Drive 4 Singapore 117585 Singapore
- Institute of Materials Research and Engineering; 2 Fusionopolis Way Singapore 138634 Singapore
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12
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Zhang CJ, Wang J, Zhang J, Lee YM, Feng G, Lim TK, Shen HM, Lin Q, Liu B. Mechanism-Guided Design and Synthesis of a Mitochondria-Targeting Artemisinin Analogue with Enhanced Anticancer Activity. Angew Chem Int Ed Engl 2016. [DOI: 10.1002/ange.201607303] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Affiliation(s)
- Chong-Jing Zhang
- Department of Chemical and Biomolecular Engineering; National University of Singapore; 4 Engineering Drive 4 Singapore 117585 Singapore
| | - Jigang Wang
- The State Key Laboratory of Pharmaceutical Biotechnology; College of Life Science; Nanjing University; Nanjing 210023 China
- Department of Biological Science; National University of Singapore; 14 Science Drive 4 Singapore 117543 Singapore
| | - Jianbin Zhang
- Department of Physiology; Yong Loo Lin School of Medicine; National University of Singapore; 2 Medical Drive Singapore 117597 Singapore
| | - Yew Mun Lee
- Department of Biological Science; National University of Singapore; 14 Science Drive 4 Singapore 117543 Singapore
| | - Guangxue Feng
- Department of Chemical and Biomolecular Engineering; National University of Singapore; 4 Engineering Drive 4 Singapore 117585 Singapore
| | - Teck Kwang Lim
- Department of Biological Science; National University of Singapore; 14 Science Drive 4 Singapore 117543 Singapore
| | - Han-Ming Shen
- Department of Physiology; Yong Loo Lin School of Medicine; National University of Singapore; 2 Medical Drive Singapore 117597 Singapore
| | - Qingsong Lin
- Department of Biological Science; National University of Singapore; 14 Science Drive 4 Singapore 117543 Singapore
| | - Bin Liu
- Department of Chemical and Biomolecular Engineering; National University of Singapore; 4 Engineering Drive 4 Singapore 117585 Singapore
- Institute of Materials Research and Engineering; 2 Fusionopolis Way Singapore 138634 Singapore
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13
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Hamagami H, Kumazoe M, Yamaguchi Y, Fuse S, Tachibana H, Tanaka H. 6-Azido-6-deoxy-l
-idose as a Hetero-Bifunctional Spacer for the Synthesis of Azido-Containing Chemical Probes. Chemistry 2016; 22:12884-90. [DOI: 10.1002/chem.201602044] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2016] [Indexed: 01/21/2023]
Affiliation(s)
- Hiroki Hamagami
- Department of Chemical Science and Engineering; School of Material and Chemical Technology; Tokyo Institute of Technology; 2-12-1-H101 Ookayama Meguro Tokyo 152-8552 Japan
| | - Motofumi Kumazoe
- Department of Bioscience and Biotechnology; Faculty of Agriculture; Kyushu University; 6-10-1 Hakozaki Fukuoka 812-8581 Japan
| | - Yoshiki Yamaguchi
- RIKEN-Max-Planck Joint Research Center, for Systems Chemical Biology; RIKEN Global Research Cluster; 2-1 Hirosawa Wako Saitama 351-0198 Japan
| | - Shinichiro Fuse
- Department of Chemical Science and Engineering; School of Material and Chemical Technology; Tokyo Institute of Technology; 2-12-1-H101 Ookayama Meguro Tokyo 152-8552 Japan
- Laboratory for Chemistry and Life Science; Tokyo Institute of Technology; 4259 Nagatsuta-cho Midori-ku Yokohama 226-8503 Japan
| | - Hirofumi Tachibana
- Department of Bioscience and Biotechnology; Faculty of Agriculture; Kyushu University; 6-10-1 Hakozaki Fukuoka 812-8581 Japan
| | - Hiroshi Tanaka
- Department of Chemical Science and Engineering; School of Material and Chemical Technology; Tokyo Institute of Technology; 2-12-1-H101 Ookayama Meguro Tokyo 152-8552 Japan
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14
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Zhao W, Lorenz N, Jung K, Sieber SA. Natürliche Fimbrolide inhibieren Autoinduktorbiosynthese und Luziferaseaktivität und unterdrücken damit die Biolumineszenz inVibrio. Angew Chem Int Ed Engl 2015. [DOI: 10.1002/ange.201508052] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Affiliation(s)
- Weining Zhao
- Center for integrated Protein Science Munich (CiPSM) am Department für Chemie; Technische Universität München; Lichtenbergstraße 4 85748 Garching Deutschland
| | - Nicola Lorenz
- Center for integrated Protein Science Munich (CiPSM) am Department für Biologie; Ludwig-Maximilians-Universität München; Großhaderner Straße 2-4 82152 Martinsried Deutschland
| | - Kirsten Jung
- Center for integrated Protein Science Munich (CiPSM) am Department für Biologie; Ludwig-Maximilians-Universität München; Großhaderner Straße 2-4 82152 Martinsried Deutschland
| | - Stephan A. Sieber
- Center for integrated Protein Science Munich (CiPSM) am Department für Chemie; Technische Universität München; Lichtenbergstraße 4 85748 Garching Deutschland
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15
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Zhao W, Lorenz N, Jung K, Sieber SA. Fimbrolide Natural Products Disrupt Bioluminescence of Vibrio By Targeting Autoinducer Biosynthesis and Luciferase Activity. Angew Chem Int Ed Engl 2015; 55:1187-91. [PMID: 26609793 DOI: 10.1002/anie.201508052] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/27/2015] [Indexed: 12/14/2022]
Abstract
Vibrio is a model organism for the study of quorum sensing (QS) signaling and is used to identify QS-interfering drugs. Naturally occurring fimbrolides are important tool compounds known to affect QS in various organisms; however, their cellular targets have so far remained elusive. Here we identify the irreversible fimbrolide targets in the proteome of living V. harveyi and V. campbellii via quantitative mass spectrometry utilizing customized probes. Among the major hits are two protein targets with essential roles in Vibrio QS and bioluminescence. LuxS, responsible for autoinducer 2 biosynthesis, and LuxE, a subunit of the luciferase complex, were both covalently modified at their active-site cysteines leading to inhibition of activity. The identification of LuxE unifies previous reports suggesting inhibition of bioluminescence downstream of the signaling cascade and thus contributes to a better mechanistic understanding of these QS tool compounds.
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Affiliation(s)
- Weining Zhao
- Munich Center for integrated Protein Science (CiPSM) at the Department of Chemistry, Technische Universität München, Lichtenbergstrasse 4, 85748, Garching, Germany
| | - Nicola Lorenz
- Munich Center for integrated Protein Science (CiPSM) at the Department of Biology I, Ludwig-Maximilians-Universität München, Großhaderner Strasse 2-4, 82152, Martinsried, Germany
| | - Kirsten Jung
- Munich Center for integrated Protein Science (CiPSM) at the Department of Biology I, Ludwig-Maximilians-Universität München, Großhaderner Strasse 2-4, 82152, Martinsried, Germany
| | - Stephan A Sieber
- Munich Center for integrated Protein Science (CiPSM) at the Department of Chemistry, Technische Universität München, Lichtenbergstrasse 4, 85748, Garching, Germany.
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16
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Nickel S, Serwa RA, Kaschani F, Ninck S, Zweerink S, Tate EW, Kaiser M. Chemoproteomic Evaluation of the Polyacetylene Callyspongynic Acid. Chemistry 2015; 21:10721-8. [PMID: 26079733 DOI: 10.1002/chem.201500934] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2015] [Indexed: 01/17/2023]
Abstract
Polyacetylenes are a class of alkyne-containing natural products. Although potent bioactivities and thus possible applications as chemical probes have already been reported for some polyacetylenes, insights into the biological activities or molecular mode of action are still rather limited in most cases. To overcome this limitation, we describe the application of the polyacetylene callyspongynic acid in the development of an experimental roadmap for characterizing potential protein targets of alkyne-containing natural products. To this end, we undertook the first chemical synthesis of callyspongynic acid. We then used in situ chemical proteomics methods to demonstrate extensive callyspongynic acid-mediated chemical tagging of endoplasmic reticulum-associated lipid-metabolizing and modifying enzymes. We anticipate that an elucidation of protein targets of natural products may serve as an effective guide to the development of subsequent biological assays that aim to identify chemical phenotypes and bioactivities.
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Affiliation(s)
- Sabrina Nickel
- Chemische Biologie, ZMB, Universität Duisburg-Essen, Universitätsstr. 2, 45117 Essen (Germany)
| | - Remigiusz A Serwa
- Department of Chemistry, Imperial College London, Exhibition Road, London SW7 2AZ (UK)
| | - Farnusch Kaschani
- Chemische Biologie, ZMB, Universität Duisburg-Essen, Universitätsstr. 2, 45117 Essen (Germany)
| | - Sabrina Ninck
- Chemische Biologie, ZMB, Universität Duisburg-Essen, Universitätsstr. 2, 45117 Essen (Germany)
| | - Susanne Zweerink
- Chemische Biologie, ZMB, Universität Duisburg-Essen, Universitätsstr. 2, 45117 Essen (Germany)
| | - Edward W Tate
- Department of Chemistry, Imperial College London, Exhibition Road, London SW7 2AZ (UK)
| | - Markus Kaiser
- Chemische Biologie, ZMB, Universität Duisburg-Essen, Universitätsstr. 2, 45117 Essen (Germany).
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17
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Li C, Dong T, Li Q, Lei X. Probing the Anticancer Mechanism of (−)-Ainsliatrimer A through Diverted Total Synthesis and Bioorthogonal Ligation. Angew Chem Int Ed Engl 2014; 53:12111-5. [DOI: 10.1002/anie.201407225] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2014] [Indexed: 01/23/2023]
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18
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Li C, Dong T, Li Q, Lei X. Probing the Anticancer Mechanism of (−)-Ainsliatrimer A through Diverted Total Synthesis and Bioorthogonal Ligation. Angew Chem Int Ed Engl 2014. [DOI: 10.1002/ange.201407225] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
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19
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Nasheri N, McKay CS, Fulton K, Twine S, Powdrill MH, Sherratt AR, Pezacki JP. Hydrophobic triaryl-substituted β-lactams as activity-based probes for profiling eukaryotic enzymes and host-pathogen interactions. Chembiochem 2014; 15:2195-200. [PMID: 25179744 DOI: 10.1002/cbic.201402097] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2014] [Indexed: 02/06/2023]
Affiliation(s)
- Neda Nasheri
- Life Sciences Division, National Research Council of Canada, 100 Sussex Drive, Ottawa, ON, K1A 0R6 (Canada); Department of Biochemistry, Microbiology and Immunology, University of Ottawa, 451 Smyth Road, Ottawa, ON, K1H 8M5 (Canada)
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20
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Willems LI, Jiang J, Li KY, Witte MD, Kallemeijn WW, Beenakker TJN, Schröder SP, Aerts JMFG, van der Marel GA, Codée JDC, Overkleeft HS. From Covalent Glycosidase Inhibitors to Activity-Based Glycosidase Probes. Chemistry 2014; 20:10864-72. [DOI: 10.1002/chem.201404014] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
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21
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Shymanska NV, An IH, Pierce JG. A Rapid Synthesis of 4-Oxazolidinones: Total Synthesis of Synoxazolidinones A and B. Angew Chem Int Ed Engl 2014. [DOI: 10.1002/ange.201402310] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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22
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Shymanska NV, An IH, Pierce JG. A Rapid Synthesis of 4-Oxazolidinones: Total Synthesis of Synoxazolidinones A and B. Angew Chem Int Ed Engl 2014; 53:5401-4. [DOI: 10.1002/anie.201402310] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2014] [Revised: 03/06/2014] [Indexed: 01/05/2023]
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23
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List A, Zeiler E, Gallastegui N, Rusch M, Hedberg C, Sieber SA, Groll M. Omuralid und Vibralacton: Unterschiede im Proteasom-β-Lacton-γ-Lactamgerüst verändern die Zielmolekülpräferenz. Angew Chem Int Ed Engl 2013. [DOI: 10.1002/ange.201308567] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
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24
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List A, Zeiler E, Gallastegui N, Rusch M, Hedberg C, Sieber SA, Groll M. Omuralide and vibralactone: differences in the proteasome- β-lactone-γ-lactam binding scaffold alter target preferences. Angew Chem Int Ed Engl 2013; 53:571-4. [PMID: 24285701 DOI: 10.1002/anie.201308567] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2013] [Indexed: 02/05/2023]
Abstract
Despite their structural similarity, the natural products omuralide and vibralactone have different biological targets. While omuralide blocks the chymotryptic activity of the proteasome with an IC50 value of 47 nM, vibralactone does not have any effect at this protease up to a concentration of 1 mM. Activity-based protein profiling in HeLa cells revealed that the major targets of vibralactone are APT1 and APT2.
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Affiliation(s)
- Anja List
- Center for Integrated Protein Science Munich, Department Chemie, Technische Universität München, Lichtenbergstrasse 4, 85747 Garching (Germany)
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25
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Wirth T, Pestel GF, Ganal V, Kirmeier T, Schuberth I, Rein T, Tietze PLF, Sieber PSA. The Two Faces of Potent Antitumor Duocarmycin-Based Drugs: A Structural Dissection Reveals Disparate Motifs for DNA versus Aldehyde Dehydrogenase 1 Affinity. Angew Chem Int Ed Engl 2013; 52:6921-5. [DOI: 10.1002/anie.201208941] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/08/2012] [Revised: 03/27/2013] [Indexed: 01/15/2023]
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26
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Wirth T, Pestel GF, Ganal V, Kirmeier T, Schuberth I, Rein T, Tietze PLF, Sieber PSA. The Two Faces of Potent Antitumor Duocarmycin-Based Drugs: A Structural Dissection Reveals Disparate Motifs for DNA versus Aldehyde Dehydrogenase 1 Affinity. Angew Chem Int Ed Engl 2013. [DOI: 10.1002/ange.201208941] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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27
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Sakurai K, Yamada R, Okada A, Tawa M, Ozawa S, Inoue M. Selective Fluorescence Detection of Small-Molecule-Binding Proteins by Using a Dual Photoaffinity Labeling System. Chembiochem 2013; 14:421-5. [DOI: 10.1002/cbic.201200758] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2012] [Indexed: 01/01/2023]
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28
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Oeljeklaus J, Kaschani F, Kaiser M. “Vollständig funktionalisierte” Verbindungsbibliotheken zur effizienteren Targetidentifizierung nach phänotypischen Screens. Angew Chem Int Ed Engl 2012. [DOI: 10.1002/ange.201207306] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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29
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Oeljeklaus J, Kaschani F, Kaiser M. Streamlining chemical probe discovery: libraries of "fully functionalized" small molecules for phenotypic screening. Angew Chem Int Ed Engl 2012; 52:1368-70. [PMID: 23281006 DOI: 10.1002/anie.201207306] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2012] [Revised: 11/22/2012] [Indexed: 01/19/2023]
Affiliation(s)
- Julian Oeljeklaus
- Zentrum für Medizinische Biotechnologie, Fakultät für Biologie, Universität Duisburg-Essen, Universitätsstr. 2, 45117 Essen, Germany
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30
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Krysiak JM, Kreuzer J, Macheroux P, Hermetter A, Sieber SA, Breinbauer R. Activity-based probes for studying the activity of flavin-dependent oxidases and for the protein target profiling of monoamine oxidase inhibitors. Angew Chem Int Ed Engl 2012; 51:7035-40. [PMID: 22689512 PMCID: PMC3470703 DOI: 10.1002/anie.201201955] [Citation(s) in RCA: 57] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2012] [Indexed: 01/11/2023]
Abstract
High profile: new activity-based protein profiling (ABPP) probes have been designed that target exclusively monoamine oxidases A and B within living cells (see picture; FAD=flavin adenine dinucleotide, FMN=flavin monodinucleotide). With these probes it could be shown that the MAO inhibitor deprenyl, which is in clinical use against Parkinson's disease, shows unique protein specificity despite its covalent mechanism of action.
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Affiliation(s)
- Joanna M Krysiak
- Institute of Organic Chemistry, Graz University of TechnologyStremayrgasse 9, 8010 Graz (Austria)
| | - Johannes Kreuzer
- Center for Integrated Protein Science CIPSM, Department of Chemistry, Institute of Advanced Studies IAS, Technische Universität MünchenLichtenbergstraße 4, 85747 Garching (Germany)
| | - Peter Macheroux
- Institute of Biochemistry, Graz University of TechnologyPetersgasse 12, 8010 Graz (Austria)
| | - Albin Hermetter
- Institute of Biochemistry, Graz University of TechnologyPetersgasse 12, 8010 Graz (Austria)
| | - Stephan A Sieber
- Center for Integrated Protein Science CIPSM, Department of Chemistry, Institute of Advanced Studies IAS, Technische Universität MünchenLichtenbergstraße 4, 85747 Garching (Germany)
| | - Rolf Breinbauer
- Institute of Organic Chemistry, Graz University of TechnologyStremayrgasse 9, 8010 Graz (Austria)
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31
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Krysiak JM, Kreuzer J, Macheroux P, Hermetter A, Sieber SA, Breinbauer R. Aktivitätsbasierte Sondenmoleküle zur Untersuchung der Aktivität Flavin-abhängiger Oxidasen und zum Zielprotein-Profiling von Monoaminooxidase-Inhibitoren. Angew Chem Int Ed Engl 2012. [DOI: 10.1002/ange.201201955] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
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32
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Yang P, Wang M, Liu K, Ngai MH, Sheriff O, Lear MJ, Sze SK, He CY, Yao SQ. Parasite‐Based Screening and Proteome Profiling Reveal Orlistat, an FDA‐Approved Drug, as a Potential Anti
Trypanosoma brucei
Agent
[
]. Chemistry 2012; 18:8403-13. [DOI: 10.1002/chem.201200482] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2012] [Revised: 03/22/2012] [Indexed: 12/21/2022]
Affiliation(s)
- Peng‐Yu Yang
- Department of Chemistry, National University of Singapore, 3 Science Drive 3, Singapore 117543 (Singapore), Fax: (+65) 6779‐1691
| | - Min Wang
- Department of Biological Sciences, National University of Singapore, 14 Science Drive 4, Singapore 117543 (Singapore)
| | - Kai Liu
- Department of Biological Sciences, National University of Singapore, 14 Science Drive 4, Singapore 117543 (Singapore)
| | - Mun Hong Ngai
- Department of Chemistry, National University of Singapore, 3 Science Drive 3, Singapore 117543 (Singapore), Fax: (+65) 6779‐1691
| | - Omar Sheriff
- Department of Biological Sciences, National University of Singapore, 14 Science Drive 4, Singapore 117543 (Singapore)
| | - Martin J. Lear
- Department of Chemistry, National University of Singapore, 3 Science Drive 3, Singapore 117543 (Singapore), Fax: (+65) 6779‐1691
| | - Siu Kwan Sze
- School of Biological Sciences, Nanyang Technological University, 60 Nanyang Drive, Singapore 637551 (Singapore)
| | - Cynthia Y. He
- Department of Biological Sciences, National University of Singapore, 14 Science Drive 4, Singapore 117543 (Singapore)
| | - Shao Q. Yao
- Department of Chemistry, National University of Singapore, 3 Science Drive 3, Singapore 117543 (Singapore), Fax: (+65) 6779‐1691
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33
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Sakurai K, Tawa M, Okada A, Yamada R, Sato N, Inahara M, Inoue M. Active/Inactive Dual‐Probe System for Selective Photoaffinity Labeling of Small Molecule‐Binding Proteins. Chem Asian J 2012; 7:1567-71. [DOI: 10.1002/asia.201200085] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2012] [Revised: 03/02/2012] [Indexed: 12/19/2022]
Affiliation(s)
- Kaori Sakurai
- Department of Biotechnology and Life Science, Tokyo University of Agriculture and Technology, 2‐24‐16 Naka‐cho, Koganei‐shi, Tokyo 184‐8588 (Japan), Fax: (+81) 42‐388‐7374
| | - Masaki Tawa
- Department of Biotechnology and Life Science, Tokyo University of Agriculture and Technology, 2‐24‐16 Naka‐cho, Koganei‐shi, Tokyo 184‐8588 (Japan), Fax: (+81) 42‐388‐7374
| | - Ayumi Okada
- Department of Biotechnology and Life Science, Tokyo University of Agriculture and Technology, 2‐24‐16 Naka‐cho, Koganei‐shi, Tokyo 184‐8588 (Japan), Fax: (+81) 42‐388‐7374
| | - Rika Yamada
- Department of Biotechnology and Life Science, Tokyo University of Agriculture and Technology, 2‐24‐16 Naka‐cho, Koganei‐shi, Tokyo 184‐8588 (Japan), Fax: (+81) 42‐388‐7374
| | - Noriyuki Sato
- Department of Biotechnology and Life Science, Tokyo University of Agriculture and Technology, 2‐24‐16 Naka‐cho, Koganei‐shi, Tokyo 184‐8588 (Japan), Fax: (+81) 42‐388‐7374
| | - Masahiro Inahara
- Department of Biotechnology and Life Science, Tokyo University of Agriculture and Technology, 2‐24‐16 Naka‐cho, Koganei‐shi, Tokyo 184‐8588 (Japan), Fax: (+81) 42‐388‐7374
| | - Maia Inoue
- Department of Biotechnology and Life Science, Tokyo University of Agriculture and Technology, 2‐24‐16 Naka‐cho, Koganei‐shi, Tokyo 184‐8588 (Japan), Fax: (+81) 42‐388‐7374
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34
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Kaschani F, Clerc J, Krahn D, Bier D, Hong TN, Ottmann C, Niessen S, Colby T, van der Hoorn RAL, Kaiser M. Identification of a selective, activity-based probe for glyceraldehyde 3-phosphate dehydrogenases. Angew Chem Int Ed Engl 2012; 51:5230-3. [PMID: 22489074 DOI: 10.1002/anie.201107276] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2011] [Indexed: 11/06/2022]
Affiliation(s)
- Farnusch Kaschani
- Zentrum für Medizinische Biotechnologie, Fakultät für Biologie, Universität Duisburg-Essen, Universitätsstrasse 2, 45117 Essen, Germany
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35
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Kaschani F, Clerc J, Krahn D, Bier D, Hong TN, Ottmann C, Niessen S, Colby T, van der Hoorn RAL, Kaiser M. Identifizierung einer selektiven aktivitätsbasierten Sonde für Glycerinaldehyd-3-phosphat-Dehydrogenasen. Angew Chem Int Ed Engl 2012. [DOI: 10.1002/ange.201107276] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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36
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Yang PY, Wang M, Li L, Wu H, He CY, Yao SQ. Design, synthesis and biological evaluation of potent azadipeptide nitrile inhibitors and activity-based probes as promising anti-Trypanosoma brucei agents. Chemistry 2012; 18:6528-41. [PMID: 22488888 DOI: 10.1002/chem.201103322] [Citation(s) in RCA: 45] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2011] [Indexed: 12/15/2022]
Abstract
Trypanosoma cruzi and Trypanosoma brucei are parasites that cause Chagas disease and African sleeping sickness, respectively. There is an urgent need for the development of new drugs against both diseases due to the lack of adequate cures and emerging drug resistance. One promising strategy for the discovery of small-molecule therapeutics against parasitic diseases has been to target the major cysteine proteases such as cruzain for T. cruzi, and rhodesain/TbCatB for T. brucei. Azadipeptide nitriles belong to a novel class of extremely potent cysteine protease inhibitors against papain-like proteases. We herein report the design, synthesis, and evaluation of a series of azanitrile-containing compounds, most of which were shown to potently inhibit both recombinant cruzain and rhodesain at low nanomolar/picomolar ranges. A strong correlation between the potency of rhodesain inhibition (i.e., target-based screening) and trypanocidal activity (i.e., whole-organism-based screening) of the compounds was observed. To facilitate detailed studies of this important class of inhibitors, selected hit compounds from our screenings were chemically converted into activity-based probes (ABPs), which were subsequently used for in situ proteome profiling and cellular localization studies to further elucidate potential cellular targets (on and off) in both the disease-relevant bloodstream form (BSF) and the insect-residing procyclic form (PCF) of Trypanosoma brucei. Overall, the inhibitors presented herein show great promise as a new class of anti-trypanosome agents, which possess better activities than existing drugs. The activity-based probes generated from this study could also serve as valuable tools for parasite-based proteome profiling studies, as well as bioimaging agents for studies of cellular uptake and distribution of these drug candidates. Our studies therefore provide a good starting point for further development of these azanitrile-containing compounds as potential anti-parasitic agents.
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Affiliation(s)
- Peng-Yu Yang
- Department of Chemistry, National University of Singapore, 3 Science Drive 3, Singapore 117543, Singapore
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37
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Wirth T, Schmuck K, Tietze LF, Sieber SA. Duocarmycin Analogues Target Aldehyde Dehydrogenase 1 in Lung Cancer Cells. Angew Chem Int Ed Engl 2012. [DOI: 10.1002/ange.201106334] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
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38
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Wirth T, Schmuck K, Tietze LF, Sieber SA. Duocarmycin Analogues Target Aldehyde Dehydrogenase 1 in Lung Cancer Cells. Angew Chem Int Ed Engl 2012; 51:2874-7. [DOI: 10.1002/anie.201106334] [Citation(s) in RCA: 65] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2011] [Indexed: 01/05/2023]
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39
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Zeiler E, Braun N, Böttcher T, Kastenmüller A, Weinkauf S, Sieber SA. Vibralactone as a Tool to Study the Activity and Structure of the ClpP1P2 Complex from Listeria monocytogenes. Angew Chem Int Ed Engl 2011; 50:11001-4. [DOI: 10.1002/anie.201104391] [Citation(s) in RCA: 74] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/24/2011] [Indexed: 11/08/2022]
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40
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Zeiler E, Braun N, Böttcher T, Kastenmüller A, Weinkauf S, Sieber SA. Vibralacton als Sonde zur Aufklärung der Aktivität und Struktur des ClpP1P2-Komplexes aus Listeria monocytogenes. Angew Chem Int Ed Engl 2011. [DOI: 10.1002/ange.201104391] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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41
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Yang PY, Liu K, Zhang C, Chen GYJ, Shen Y, Ngai MH, Lear MJ, Yao SQ. Chemical Modification and Organelle-Specific Localization of Orlistat-Like Natural-Product-Based Probes. Chem Asian J 2011; 6:2762-75. [DOI: 10.1002/asia.201100306] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2011] [Indexed: 12/20/2022]
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42
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Evaluation of sulfatase-directed quinone methide traps for proteomics. Bioorg Med Chem 2011; 20:622-7. [PMID: 21570853 DOI: 10.1016/j.bmc.2011.04.044] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2011] [Revised: 04/12/2011] [Accepted: 04/20/2011] [Indexed: 11/24/2022]
Abstract
Sulfatases hydrolytically cleave sulfate esters through a unique catalytic aldehyde, which is introduced by a posttranslational oxidation. To profile active sulfatases in health and disease, activity-based proteomic tools are needed. Herein, quinone methide (QM) traps directed against sulfatases are evaluated as activity-based proteomic probes (ABPPs). Starting from a p-fluoromethylphenyl sulfate scaffold, enzymatically generated QM-traps can inactivate bacterial aryl sulfatases from Pseudomonas aeruginosa and Klebsiella pneumoniae, and human steroid sulfatase. However, multiple enzyme-generated QMs form, diffuse, and non-specifically label purified enzyme. In complex proteomes, QM labeling is sulfatase-dependent but also non-specific. Thus, fluoromethylphenyl sulfates are poor ABPPs for sulfatases.
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